Meeting on 2024-08-19

Data Updates

• GBIF: plant dataset that we looked at during summit INSDC Host Organism Database

  • scraped genetic data from NCBI, Japanese and European nucleotide archives
  • Viruses with associated host taxa information
  • Lizzie's exploration of a subset of the data: https://github.com/EMLgit/GBIF-viruses

• NEON data: sequencing files not well organized: download zipfiles of fasta files. But sampling is well setup for tick disease and tickborn disease in rodents.

Potential collaborators

• Colin Carlson https://ghss.georgetown.edu/people/carlson/
• Timothee Poisot https://poisotlab.io/
• Tad Dallas https://taddallas.github.io/
• Shannon Lynch @ UC Davis host shifts due to climate change: https://www.lynchforestpathology.com/about-us
• Rachel Penczykowski St. Louis: https://penczykowskilab.com/

Tasks

• Rob: List of key questions, data, and outcomes
• by the 26^th.
• Send example code for downloading